Deborah Rachelle Winter

  • 11496 Citations
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Personal profile

Research Interests

I was one of the first students to obtain an undergraduate degree in Bioinformatics and Computational Biology at University of Toronto. Then, I trained as a computational biologist at Duke University (PhD) under Drs. Greg Crawford and Terry Furey focusing on gene regulation, specifically, using high-throughput sequencing assays to study chromatin dynamics across diverse human cell lines. For my postdoc, I joined Ido Amit's lab in Immunogenomics at the Weizmann Institute of Science in Israel where I applied genomic approaches to the study of immunology. My landmark paper showed that tissue-resident macrophages are capable of adopting tissue-specific functions by reprogramming their chromatin landscape in response to signal from the local environment.

As a computational immunologist, I interested in mapping the gene regulatory networks of immune cells in health and disease, particularly macrophages in rheumatic disease. As a plastic immune cell type, macrophages are found throughout the body where they play an important role in both homeostatic functions and immune response. The are critical to the pathogenesis of autoimmune diseases, such as rheumatoid arthritis and systemic sclerosis. Using high-throughput sequencing assays and computational techniques, I seek to profile the transcriptional and epigenomic profile of macrophages in different tissues in mouse models and patients with these diseases. We believe that a better understanding of the function and malfunction of macrophages we enable to develop more precise and effective treatments.

Education/Academic qualification

PhD, Duke University

… → 2013


  • Arthritis - Rheumatoid
  • Big Data
  • Bioinformatics
  • Chromatin
  • Computational Biology
  • Epigenetics
  • Gene Regulation
  • Genomics
  • Immunology
  • Rheumatology
  • Scleroderma
  • Systems Biology

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Transcription Factors Medicine & Life Sciences

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Grants 2017 2023

Plasminogen Activator Inhibitor 1
Cardiac Myocytes
Reperfusion Injury
Myocardial Reperfusion Injury
Myocardial Infarction
Lung Injury
Tissue Donors
Primary Graft Dysfunction
Myeloid Cells

Research Output 2007 2019

  • 11496 Citations
  • 23 Article
  • 4 Review article
  • 2 Short survey
  • 1 Comment/debate

Lipocalin-2 is a pathogenic determinant and biomarker of neuropsychiatric lupus

Mike, E. V., Makinde, H. M., Gulinello, M., Vanarsa, K., Herlitz, L., Gadhvi, G., Winter, D. R., Mohan, C., Hanly, J. G., Mok, C. C., Cuda, C. M. & Putterman, C., Jan 1 2019, In : Journal of Autoimmunity. 96, p. 59-73 15 p.

Research output: Contribution to journalArticle

RNA Sequence Analysis
Memory Disorders
2 Citations (Scopus)

A beginner’s guide to analysis of RNA sequencing data

Koch, C. M., Chiu, S. F., Akbarpour, M., Bharat, A., Ridge, K. M., Bartom, E. T. & Winter, D. R., Aug 1 2018, In : American journal of respiratory cell and molecular biology. 59, 2, p. 145-157 13 p.

Research output: Contribution to journalReview article

RNA Sequence Analysis
Research Personnel
3 Citations (Scopus)

Neuropsychiatric Systemic Lupus Erythematosus Is Dependent on Sphingosine-1-Phosphate Signaling

Mike, E. V., Makinde, H. M., Der, E., Stock, A., Gulinello, M., Gadhvi, G. T., Winter, D. R., Cuda, C. M. & Putterman, C., Jan 1 2018, In : Frontiers in immunology. 9, 1 p.

Research output: Contribution to journalArticle

Central Nervous System Lupus Vasculitis
Inbred MRL lpr Mouse
Lysosphingolipid Receptors

Single-Cell Transcriptomic Analysis of Human Lung Provides Insights into the Pathobiology of Pulmonary Fibrosis

Reyfman, P. A., Walter, J. M., Joshi, N., Anekalla, K. R., McQuattie-Pimentel, A. C., Chiu, S., Fernandez, R., Akbarpour, M., Chen, C-I., Ren, Z., Verma, R., Abdala-Valencia, H., Nam, K., Chi, M., Han, S., Gonzalez-Gonzalez, F. J., Soberanes, S., Watanabe, S., Williams, K. J. N., Flozak, A. S. & 29 othersNicholson, T. T., Morgan, V. K., Winter, D. R., Hinchcliff, M., Hrusch, C. L., Guzy, R. D., Bonham, C. A., Sperling, A. I., Bag, R., Hamanaka, R. B., Mutlu, G. M., Yeldandi, A. V., Marshall, S. A., Shilatifard, A., Amaral, L. A. N., Perlman, H., Sznajder, J. I., Argento, A. C., Gillespie, C. T., Dematte, J., Jain, M., Singer, B. D., Ridge, K. M., Lam, A. P., Bharat, A., Bhorade, S. M., Gottardi, C. J., Budinger, G. R. S. & Misharin, A. V., Dec 15 2018, In : American Journal of Respiratory and Critical Care Medicine.

Research output: Contribution to journalArticle

Single-Cell Analysis
Pulmonary Fibrosis
RNA Sequence Analysis
Alveolar Macrophages

Thinking BIG rheumatology: How to make functional genomics data work for you

Winter, D. R., Feb 12 2018, In : Arthritis Research and Therapy. 20, 1, 29.

Research output: Contribution to journalReview article

Gene Regulatory Networks
Rheumatic Diseases